SPACI score report for 2ygs in ASTRAL 1.57:

PDB Entry: 2ygs
SPACI score: 0.61
AEROSPACI score: 0.61

Experiment type: XRAY
Resolution: 1.6
R-factor: 0.198
PCK1 PROCHECK Ramachandran: 1
PCK2 PROCHECK Chi-1 angle: 1
PCK3 PROCHECK H-bonds: 1
WCK1 WHAT_CHECK Packing: 2.144
WCK2 WHAT_CHECK Ramachandran: 1.223
WCK3 WHAT_CHECK Chi angles: 2.757
WCK4 WHAT_CHECK Backbone: 0.697

Note: Here are links to pages about PROCHECK and WHAT_CHECK.

Here is the full WHAT_CHECK report on this protein (linked from the WHAT_CHECK site).